| Back to Multiple platform build/check report for BioC 3.22: simplified long |
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This page was generated on 2025-11-07 12:00 -0500 (Fri, 07 Nov 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 24.04.3 LTS) | x86_64 | 4.5.1 Patched (2025-08-23 r88802) -- "Great Square Root" | 4902 |
| kjohnson3 | macOS 13.7.7 Ventura | arm64 | 4.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" | 4638 |
| Click on any hostname to see more info about the system (e.g. compilers) (*) as reported by 'uname -p', except on Windows and Mac OS X | ||||
| Package 214/2361 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
Pierrick Roger
| nebbiolo2 | Linux (Ubuntu 24.04.3 LTS) / x86_64 | OK | ERROR | skipped | |||||||||
| kjohnson3 | macOS 13.7.7 Ventura / arm64 | OK | ERROR | skipped | skipped | |||||||||
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To the developers/maintainers of the biodbUniprot package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/biodbUniprot.git to reflect on this report. See Troubleshooting Build Report for more information. - Use the following Renviron settings to reproduce errors and warnings. - If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information. |
| Package: biodbUniprot |
| Version: 1.16.0 |
| Command: /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data biodbUniprot |
| StartedAt: 2025-11-06 15:46:25 -0500 (Thu, 06 Nov 2025) |
| EndedAt: 2025-11-06 15:46:30 -0500 (Thu, 06 Nov 2025) |
| EllapsedTime: 5.1 seconds |
| RetCode: 1 |
| Status: ERROR |
| PackageFile: None |
| PackageFileSize: NA |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data biodbUniprot ### ############################################################################## ############################################################################## * checking for file ‘biodbUniprot/DESCRIPTION’ ... OK * preparing ‘biodbUniprot’: * checking DESCRIPTION meta-information ... OK * installing the package to build vignettes * creating vignettes ... ERROR --- re-building ‘biodbUniprot.Rmd’ using rmarkdown INFO [15:46:28.760] Loading definitions from package biodb version 1.18.0. INFO [15:46:29.401] Loading definitions from package biodbChebi version 1.16.0. INFO [15:46:29.411] Loading definitions from package biodbHmdb version 1.16.0. INFO [15:46:29.422] Loading definitions from package biodbNcbi version 1.14.0. INFO [15:46:29.430] Loading definitions from package biodbNci version 1.14.0. INFO [15:46:29.433] Loading definitions from package biodbUniprot version 1.16.0. INFO [15:46:29.508] Load 2 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/uniprot-958d776f924f3e7a3bae586fa731b40c. Quitting from biodbUniprot.Rmd:67-69 [unnamed-chunk-4] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ NULL ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'biodbUniprot.Rmd' failed with diagnostics: `chk::vld_null(encoding) || chk::vld_whole_number(encoding) || ` must be TRUE` chk::vld_string(encoding)` must be TRUE. --- failed re-building ‘biodbUniprot.Rmd’ SUMMARY: processing the following file failed: ‘biodbUniprot.Rmd’ Error: Vignette re-building failed. Execution halted